CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF7a : CodonNum = 79 & Codon = gAc

Details of the codons used for the mutation across all lineages (CodonProp is the proportion each codon is used for this AA mutation):

ORF	CodonNum	Mut	ORF1abMut	MutType	RefCodon	MutCodon	AACount	CodonCount	CodonProp	Genome Position
ORF7a	79	A79D		nonsyn	gCc	gAc	15261	15244	0.998886	27628-27630

Details of the mutation no within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORF	CodonNum	Mut	RefCodon	MutCodon	CodonCount	AACount	Lineage	LineageCodonProp
ORF7a	79	A79D	gCc	gAc	15244	15261	All	0.002916
ORF7a	79	A79D	gCc	gAc	8174	8184	AY.7.1	0.921222
ORF7a	79	A79D	gCc	gAc	4791	4791	AY.7	0.939044
ORF7a	79	A79D	gCc	gAc	1572	1572	AY.7.2	0.879195
ORF7a	79	A79D	gCc	gAc	162	162	AY.4	0.000252
ORF7a	79	A79D	gCc	gAc	119	119	AY.42	0.004787
ORF7a	79	A79D	gCc	gAc	117	117	B.1.1.7	0.000105
ORF7a	79	A79D	gCc	gAc	86	86	B.1.617.2	0.000324
ORF7a	79	A79D	gCc	gAc	37	37	AY.6	0.001522
ORF7a	79	A79D	gCc	gAc	12	19	AY.5	0.000248
ORF7a	79	A79D	gCc	gAc	17	17	AY.11	0.022758
ORF7a	79	A79D	gCc	gAc	13	13	AY.113	0.001851
ORF7a	79	A79D	gCc	gAc	11	11	AY.88	0.009726
ORF7a	79	A79D	gCc	gAc	10	10	AY.46.4	0.001645
ORF7a	79	A79D	gCc	gAc	9	9	AY.121	0.001218
ORF7a	79	A79D	gCc	gAc	8	8	AY.43	0.000035
ORF7a	79	A79D	gCc	gAc	6	6	AY.45	0.00073
ORF7a	79	A79D	gCc	gAc	6	6	AY.54	0.000572
ORF7a	79	A79D	gCc	gAc	6	6	AY.84	0.002625
ORF7a	79	A79D	gCc	gAc	5	5	AY.111	0.000916
ORF7a	79	A79D	gCc	gAc	5	5	AY.4.3	0.004209
ORF7a	79	A79D	gCc	gAc	5	5	AY.75	0.00028
ORF7a	79	A79D	gCc	gAc	4	4	AY.58	0.00363
ORF7a	79	A79D	gCc	gAc	3	3	AY.106	0.001005
ORF7a	79	A79D	gCc	gAc	3	3	AY.116	0.00086
ORF7a	79	A79D	gCc	gAc	3	3	AY.44	0.000018
ORF7a	79	A79D	gCc	gAc	3	3	AY.46.6	0.000217
ORF7a	79	A79D	gCc	gAc	3	3	AY.5.3	0.001012
ORF7a	79	A79D	gCc	gAc	3	3	B.1.2	0.000026
ORF7a	79	A79D	gCc	gAc	2	2	AY.100	0.000092
ORF7a	79	A79D	gCc	gAc	2	2	AY.117	0.000169
ORF7a	79	A79D	gCc	gAc	2	2	AY.12	0.000632
ORF7a	79	A79D	gCc	gAc	2	2	AY.29	0.000032
ORF7a	79	A79D	gCc	gAc	2	2	AY.32	0.001065
ORF7a	79	A79D	gCc	gAc	2	2	AY.49	0.00639
ORF7a	79	A79D	gCc	gAc	2	2	AY.64	0.00119
ORF7a	79	A79D	gCc	gAc	2	2	AY.92	0.000575
ORF7a	79	A79D	gCc	gAc	2	2	AY.98	0.000158
ORF7a	79	A79D	gCc	gAc	2	2	AY.99.1	0.003106
ORF7a	79	A79D	gCc	gAc	2	2	B.1	0.000018
ORF7a	79	A79D	gCc	gAc	2	2	B.1.525	0.000226
ORF7a	79	A79D	gCc	gAc	1	1	AY.102	0.000027
ORF7a	79	A79D	gCc	gAc	1	1	AY.108	0.001103
ORF7a	79	A79D	gCc	gAc	1	1	AY.120	0.000037
ORF7a	79	A79D	gCc	gAc	1	1	AY.17	0.008197
ORF7a	79	A79D	gCc	gAc	1	1	AY.38	0.000499
ORF7a	79	A79D	gCc	gAc	1	1	AY.39	0.000025
ORF7a	79	A79D	gCc	gAc	1	1	AY.4.4	0.000409
ORF7a	79	A79D	gCc	gAc	1	1	AY.46	0.000104
ORF7a	79	A79D	gCc	gAc	1	1	AY.48	0.000465
ORF7a	79	A79D	gCc	gAc	1	1	AY.56	0.001605
ORF7a	79	A79D	gCc	gAc	1	1	AY.69	0.000187
ORF7a	79	A79D	gCc	gAc	1	1	AY.86	0.00083
ORF7a	79	A79D	gCc	gAc	1	1	AY.9	0.000068
ORF7a	79	A79D	gCc	gAc	1	1	AY.9.1	0.000084
ORF7a	79	A79D	gCc	gAc	1	1	AY.9.2	0.000037
ORF7a	79	A79D	gCc	gAc	1	1	AY.90	0.000684
ORF7a	79	A79D	gCc	gAc	1	1	AY.93	0.000273
ORF7a	79	A79D	gCc	gAc	1	1	AY.95	0.000761
ORF7a	79	A79D	gCc	gAc	1	1	AY.99	0.001049
ORF7a	79	A79D	gCc	gAc	1	1	B	0.000128
ORF7a	79	A79D	gCc	gAc	1	1	B.1.177	0.000013
ORF7a	79	A79D	gCc	gAc	1	1	B.1.177.73	0.000566
ORF7a	79	A79D	gCc	gAc	1	1	B.1.221	0.000071
ORF7a	79	A79D	gCc	gAc	1	1	B.1.416	0.001269
ORF7a	79	A79D	gCc	gAc	1	1	B.1.564.1	0.001577
ORF7a	79	A79D	gCc	gAc	1	1	N.5	0.001767
ORF7a	79	A79D	gCc	gAc	1	1	P.1	0.000016

CoV-GLUE is still in development. CoV-GLUE was originally developed as part of COG-UK by Josh Singer using the GLUE framework at the MRC-University of Glasgow Centre for Virus Research (CVR). In 2021 it was redeveloped by Richard Orton to scale to the millions of genome sequences available. We acknowledge support from the MRC (MC_UU_12014/12), WT (220977/Z/20/Z) and UKRI G2P (MR/W005611/1). Please contact Richard Orton with any queries: Richard.Orton@glasgow.ac.uk

CoV-GLUE uses sequence data from GISAID. GISAID data provided via this web application is subject to GISAID's Terms and Conditions.